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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtacggtagtagtcacctaacctggtatatgctcacggtggacttagtcctttcactttcaattgacagttttacattgaatgtgtttgttgattttagATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGTCTCATTACAAGTCGTGGTCTTACGACAAATCTGAATTCATGAATGAGAC

Basic information

species Physcomitrella patens
transcript PP1S29_244V6.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S29_244V6.2 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv08s0007g05930.t01 (Vitis vinifera), 3'ss of exon 6
------tgtacggtagtagtcacctaacctggta-tatgctcacggtggacttagtcctttcactttcaattgacagttttacattgaatgtgtttgttgattttagATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGTC-TCATTACAAGTCGTGGTCTTACGACAAATCTGAATTCATGAATGAGAC---
        | | |||    |||  |  | |  |  | | ||    ||||  | |    | |  | || | | || | ||||||      |||  || ||  |   ||||||    | |||||||||||| ||||||||||||||||| ||||||||||| ||   | || | |       | || ||  ||      ||  |  |      
ttaaataatgcagtatccatcattttcctttttgctgttctttttgtgggttgaagtttct-gcattaagtggataattttac------tgttgttatttgtggcagATGGACATTGTATTGCAACTGTGTCACATGATCGAACAATTAAGTTGTGGTCATCTGCAGAAATTGAAA----AGGAGAAGGCTATGGATATAGACTAACTTAA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|37843745|gb|BJ601753.1|BJ601753
EST:     GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAG                         ATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT
genomic: GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAGgtgagacatt ... ttgattttagATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT
EST: gi|162164125|gb|FC339569.1|FC339569
EST:     GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAG                         ATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT
genomic: GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAGgtgagacatt ... ttgattttagATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT
EST: gi|162165231|gb|FC341187.1|FC341187
EST:     GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAG                         ATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT
genomic: GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAGgtgagacatt ... ttgattttagATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT
EST: gi|37832142|gb|BJ590154.1|BJ590154
EST:     GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAG                         ATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT
genomic: GACGCTTGCAGGCCATGAAAGTAAGGTTGCTGGAATTGATGTATCAACAGgtgagacatt ... ttgattttagATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtcctttcactttcaattgacagttttacattgaatgtgtttgttgattttagATGGGAGCTATATTGCAACTGTTTCACATGATCGAACAATCAAGTTGTGGTCTCATTACAAGTCGTGGTCTTACGACAAATCTGAATTCATGAATGAGAC
                         ttttacatt  TA-rich tract